Those pop-ups may be coming from Windows Messenger (not to be confused with MSN Messenger). See this article on how to stop it from happening.

As for those 3 programs in Add/Remove programs, the 1'st 2 are probably bad based on what I've found in Google search and probably can be removed. The 3'rd one I'm not sure of. I couldn't find any evidence of these programs running, so they're probably not there.

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